Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 76 of 172
Found at i:21692029 original size:47 final size:47
Alignment explanation
Indices: 21691955--21692364 Score: 709
Period size: 47 Copynumber: 8.7 Consensus size: 47
21691945 GCCCTTCGGG
*
21691955 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
21692003 ACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
21692051 ACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
21692097 ACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
21692143 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
21692190 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
21692237 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
21692286 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
21692333 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
21692365 ATACTATCAT
Statistics
Matches: 355, Mismatches: 2, Indels: 11
0.96 0.01 0.03
Matches are distributed among these distances:
46 91 0.26
47 167 0.47
48 50 0.14
49 47 0.13
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:21704411 original size:50 final size:53
Alignment explanation
Indices: 21704286--21704483 Score: 165
Period size: 50 Copynumber: 3.8 Consensus size: 53
21704276 ATTTGGGTAA
* * * *
21704286 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCA-CGAG--TATG
*
21704342 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGAATTGGCA-C-CGAG-ATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCACGAGTATG
* * * ** * *
21704392 ATAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTGGGCA-C-CGA-TAAG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCACGAGTATG
** * * * *
21704442 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGAATTGGCA
21704484 GTACAAGAAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
50 76 0.63
53 3 0.03
55 1 0.01
56 40 0.33
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (53 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCACGAGTATG
Found at i:21707848 original size:27 final size:26
Alignment explanation
Indices: 21707813--21707865 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
21707803 CACTAAGGTG
* *
21707813 ATCCATTCAGAA-TTTGCCAGAAAGGC
1 ATCCATTCA-AAGTTCGCCACAAAGGC
21707839 ATCCATTTCAAAGTTCGCCACAAAGGC
1 ATCCA-TTCAAAGTTCGCCACAAAGGC
21707866 TATTCTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (26 bp):
ATCCATTCAAAGTTCGCCACAAAGGC
Found at i:21707882 original size:28 final size:28
Alignment explanation
Indices: 21707818--21707925 Score: 92
Period size: 28 Copynumber: 3.9 Consensus size: 28
21707808 AGGTGATCCA
* * * * *
21707818 TTCAGAATTTGCCAGAAAGGC-ATCCAT
1 TTCAGAGTTCGCCACAAAGGCTATTCTT
*
21707845 TTCAAAGTTCGCCACAAAGGCTATTCTT
1 TTCAGAGTTCGCCACAAAGGCTATTCTT
* * *
21707873 TTCAGAGTTCGTCACAACGACTATTCTT
1 TTCAGAGTTCGCCACAAAGGCTATTCTT
* ** *
21707901 TTCATAGTTTACCATAAAGGCTATT
1 TTCAGAGTTCGCCACAAAGGCTATT
21707926 ATTTATAATC
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
27 17 0.27
28 46 0.73
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (28 bp):
TTCAGAGTTCGCCACAAAGGCTATTCTT
Found at i:21718008 original size:25 final size:25
Alignment explanation
Indices: 21717963--21718011 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21717953 ATATAGTTTT
*
21717963 TATATTAATTATAAATGTTATAATA
1 TATATTAATTATAAATATTATAATA
21717988 TATATTATATTAT-AATATTATAAT
1 TATATTA-ATTATAAATATTATAAT
21718012 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTAATTATAAATATTATAATA
Found at i:21718171 original size:17 final size:17
Alignment explanation
Indices: 21718138--21718171 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21718128 GTATGTTTGG
21718138 TTTTGGTTTTTGATGAT
1 TTTTGGTTTTTGATGAT
21718155 TTTTGCGTTTTTG-TGAT
1 TTTTG-GTTTTTGATGAT
21718172 CGTTGCTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.09, C:0.03, G:0.24, T:0.65
Consensus pattern (17 bp):
TTTTGGTTTTTGATGAT
Found at i:21719919 original size:13 final size:13
Alignment explanation
Indices: 21719903--21719930 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21719893 ATATTAAATA
21719903 TATATGCATTTGG
1 TATATGCATTTGG
21719916 TATATGCATTTGG
1 TATATGCATTTGG
21719929 TA
1 TA
21719931 AGCAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (13 bp):
TATATGCATTTGG
Found at i:21719988 original size:21 final size:21
Alignment explanation
Indices: 21719962--21720015 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
21719952 CGGCAAATGC
*
21719962 ATTTGATAAGTATATATATTT
1 ATTTGATAAGTATATACATTT
***
21719983 ATTTGAGGTGTATATACATTT
1 ATTTGATAAGTATATACATTT
*
21720004 -TTTTATAAGTAT
1 ATTTGATAAGTAT
21720016 TTGATGAATA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (21 bp):
ATTTGATAAGTATATACATTT
Found at i:21721747 original size:6 final size:6
Alignment explanation
Indices: 21721736--21721762 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21721726 TACATTAATT
21721736 TAAAAA TAAAAA TAAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAA
21721763 TATATGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:21730275 original size:79 final size:80
Alignment explanation
Indices: 21730176--21730396 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
21730166 CTCGTTCAAG
* * ** * *
21730176 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
21730239 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
21730255 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
21730320 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
21730335 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
21730397 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:21730327 original size:80 final size:80
Alignment explanation
Indices: 21730216--21730396 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
21730206 CTCATTCAAT
* * *
21730216 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
21730279 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
21730295 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
21730359 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
21730376 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
21730397 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:21730356 original size:40 final size:40
Alignment explanation
Indices: 21730213--21730396 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21730203 TAACTCATTC
* *
21730213 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
21730253 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
21730293 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
21730333 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
21730374 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21730397 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:21738174 original size:79 final size:80
Alignment explanation
Indices: 21738075--21738295 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
21738065 CTCGTTCAAG
* * ** * *
21738075 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
21738138 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
21738154 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
21738219 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
21738234 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
21738296 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:21738226 original size:80 final size:80
Alignment explanation
Indices: 21738115--21738295 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
21738105 CTCATTCAAT
* * *
21738115 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
21738178 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
21738194 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
21738258 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
21738275 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
21738296 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:21738255 original size:40 final size:40
Alignment explanation
Indices: 21738112--21738295 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21738102 TAACTCATTC
* *
21738112 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
21738152 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
21738192 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
21738232 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
21738273 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21738296 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:21739318 original size:13 final size:13
Alignment explanation
Indices: 21739300--21739324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21739290 AGGATGAGCA
21739300 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
21739313 TTTTTTTTCTTT
1 TTTTTTTTCTTT
21739325 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:21740632 original size:3 final size:3
Alignment explanation
Indices: 21740624--21740702 Score: 140
Period size: 3 Copynumber: 26.3 Consensus size: 3
21740614 CACACTTTTG
*
21740624 TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
21740672 TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
21740703 CAAAGTTCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:21740926 original size:22 final size:22
Alignment explanation
Indices: 21740893--21740936 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21740883 AAACTTGTTG
21740893 TGTGTGAATATACTATG-CAAAT
1 TGTGTGAATATAC-ATGTCAAAT
21740915 TGTGT-AAGTATACATGTCAAAT
1 TGTGTGAA-TATACATGTCAAAT
21740937 CAAGTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (22 bp):
TGTGTGAATATACATGTCAAAT
Found at i:21741007 original size:31 final size:31
Alignment explanation
Indices: 21740969--21741030 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
21740959 GATCATCTCT
*
21740969 ACAGGGATCGATTAGGTATAAATTGGTTAAG
1 ACAGGGATCGATTAAGTATAAATTGGTTAAG
21741000 ACAGGGATCGATTAAGTATAAATTGGTTAAG
1 ACAGGGATCGATTAAGTATAAATTGGTTAAG
21741031 TTATTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.29
Consensus pattern (31 bp):
ACAGGGATCGATTAAGTATAAATTGGTTAAG
Found at i:21769761 original size:40 final size:40
Alignment explanation
Indices: 21769689--21769939 Score: 319
Period size: 40 Copynumber: 6.3 Consensus size: 40
21769679 ATTTGAATGA
*
21769689 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
21769729 TATCTGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
21769769 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
21769809 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
21769849 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * *
21769889 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
21769929 TATCC-GGCTAA
1 TATCCGGGCTAA
21769940 ATTCCGAAGA
Statistics
Matches: 191, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 7 0.04
40 181 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:21772895 original size:21 final size:21
Alignment explanation
Indices: 21772865--21772911 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
21772855 CCACCGTCGA
* **
21772865 CCACCGTTGGACCTCCACTAG
1 CCACCATTGGACAACCACTAG
21772886 CCACCATTGGACAACCACTAG
1 CCACCATTGGACAACCACTAG
21772907 CCACC
1 CCACC
21772912 TCCACCGTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.45, G:0.15, T:0.15
Consensus pattern (21 bp):
CCACCATTGGACAACCACTAG
Found at i:21780875 original size:48 final size:48
Alignment explanation
Indices: 21780819--21781049 Score: 444
Period size: 48 Copynumber: 4.8 Consensus size: 48
21780809 TAAAAATTAC
21780819 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
21780867 ATCAATAATTAAAATAAGGAGTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
21780915 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAAGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
21780963 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
21781011 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
21781050 ATCAAGAAAT
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 179 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:21784463 original size:24 final size:25
Alignment explanation
Indices: 21784428--21784475 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
21784418 TTATGAAATT
21784428 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
21784452 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
21784476 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:21784464 original size:92 final size:91
Alignment explanation
Indices: 21784293--21784500 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
21784283 TTGATTTTAG
* * *
21784293 TAAA-TCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
*
21784357 ATTTAATATTAATTATTTTAAATTATA
65 ATGTAATATTAATTATTTTAAATTATA
*
21784384 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
21784448 TATGTAATAATT-ATTATTTTAAATTATA
64 TATGTAAT-ATTAATTATTTTAAATTATA
* * * *
21784476 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
21784501 GTTATAATTA
Statistics
Matches: 104, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
90 1 0.01
91 33 0.32
92 67 0.64
93 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:21784629 original size:66 final size:63
Alignment explanation
Indices: 21784554--21784764 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
21784544 AAATATATTT
21784554 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
21784619 G
63 G
* * * * **
21784620 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
21784674 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
21784738 AG
62 AG
*
21784740 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
21784765 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:21784654 original size:120 final size:120
Alignment explanation
Indices: 21784516--21784808 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
21784506 AATTATTTTA
* * *
21784516 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
21784578 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
21784636 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
21784701 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
21784756 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
21784809 TAAATATGAT
Statistics
Matches: 166, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
119 6 0.04
120 158 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:21784676 original size:15 final size:15
Alignment explanation
Indices: 21784641--21784692 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21784631 TTAAGAATTT
*
21784641 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21784655 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21784669 TATTTAATAATAAT-
1 TATTTAATTATAATA
21784683 TATGTTAATT
1 TAT-TTAATT
21784693 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21784791 original size:16 final size:16
Alignment explanation
Indices: 21784770--21784811 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21784760 TTATTAAATT
*
21784770 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21784786 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21784801 AT-TATGTTTAA
1 ATATAT-TTTAA
21784812 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21784796 original size:15 final size:15
Alignment explanation
Indices: 21784761--21784802 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21784751 TTAAGAATTT
*
21784761 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21784775 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21784789 TATTTAATAATAAT
1 TATTTAATTATAAT
21784803 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21784870 original size:6 final size:6
Alignment explanation
Indices: 21784861--21784895 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
21784851 TTAAAATTTA
21784861 AATAAC AATAAC AATAAC AATAAC AATAAC AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAA
21784896 TCATTTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:21785054 original size:45 final size:40
Alignment explanation
Indices: 21784955--21785064 Score: 105
Period size: 45 Copynumber: 2.6 Consensus size: 40
21784945 TTTTCCATTA
*
21784955 TGCTATTACACCTCTATTCCATT-CAATCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACAATCAAAAACAAGAT
* * * *
21784994 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACAATCAA--AAACA--AGA-T
* *
21785039 TGCTATTACACCTCTAATCCAATACA
1 TGCTATTACACCTCTATTCCATTACA
21785065 GCGAACCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 21 0.38
40 6 0.11
42 4 0.07
44 2 0.04
45 23 0.41
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (40 bp):
TGCTATTACACCTCTATTCCATTACAATCAAAAACAAGAT
Found at i:21788596 original size:15 final size:15
Alignment explanation
Indices: 21788578--21788614 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
21788568 ATGTTTAAAT
21788578 TTAAATAATATTTTA
1 TTAAATAATATTTTA
*
21788593 TT-AATTATATTTTA
1 TTAAATAATATTTTA
21788607 TTAAATAA
1 TTAAATAA
21788615 AGATGATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAAATAATATTTTA
Found at i:21789311 original size:35 final size:35
Alignment explanation
Indices: 21789272--21789419 Score: 163
Period size: 35 Copynumber: 4.2 Consensus size: 35
21789262 CAGTAGGATT
* *
21789272 TATATATCGTTTACAGGGTGTCACCCCGAAGGACC
1 TATATACCGTTTACACGGTGTCACCCCGAAGGACC
* * * *
21789307 TATATACCATTTACATGGTGTCACCACGAAAGACC
1 TATATACCGTTTACACGGTGTCACCCCGAAGGACC
* * * *
21789342 TACATACTGTTTACACGGTGTCGCCTCGGAA-GACC
1 TATATACCGTTTACACGGTGTCACC-CCGAAGGACC
* **
21789377 TACATACCGTTTACACGGTGTCACCCTAAAGGACC
1 TATATACCGTTTACACGGTGTCACCCCGAAGGACC
21789412 TATATACC
1 TATATACC
21789420 ATCATCATGG
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
34 3 0.03
35 88 0.94
36 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (35 bp):
TATATACCGTTTACACGGTGTCACCCCGAAGGACC
Found at i:21796235 original size:27 final size:27
Alignment explanation
Indices: 21796205--21796400 Score: 185
Period size: 27 Copynumber: 7.3 Consensus size: 27
21796195 GGGTATAACA
* *
21796205 GTCATTTTGCTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** *
21796232 GTCATTTTACACTATAAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
21796259 GTGATTTTAACCTACGGGGGCATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
21796286 GTCATTTTACCCTATGGGAGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
** * *
21796313 ACCATTCTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
21796340 ATCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
21796367 GTCATTTTACCCTGTAGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
21796394 GTCATTT
1 GTCATTT
21796401 ATCGACCTCT
Statistics
Matches: 135, Mismatches: 34, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:21798764 original size:19 final size:20
Alignment explanation
Indices: 21798742--21798792 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
21798732 ATTTATTTCT
21798742 AATTTATTTTTATT-AATTA
1 AATTTATTTTTATTCAATTA
*
21798761 AA-TTATTTTTCTTCAATTA
1 AATTTATTTTTATTCAATTA
*
21798780 ATTTTTATTTTTA
1 A-ATTTATTTTTA
21798793 AAACTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.38
19 8 0.31
21 8 0.31
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
AATTTATTTTTATTCAATTA
Found at i:21801776 original size:13 final size:13
Alignment explanation
Indices: 21801745--21801778 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
21801735 TTTTAATTTC
21801745 AATTT-ATTTAAT
1 AATTTAATTTAAT
21801757 AATTTTAATTTAAT
1 AA-TTTAATTTAAT
21801771 AATTTAAT
1 AATTTAAT
21801779 CCAAGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:21803521 original size:28 final size:27
Alignment explanation
Indices: 21803477--21803537 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
21803467 ATTTTCTTTC
* *
21803477 TATATTATTATATTATTAAAATTATTTA
1 TATATTATTATAATATTAAAATT-TATA
*
21803505 TATATTATTA-AGATATTTAAATTTATA
1 TATATTATTATA-ATATTAAAATTTATA
21803532 TATATT
1 TATATT
21803538 TAAATGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TATATTATTATAATATTAAAATTTATA
Found at i:21806143 original size:12 final size:12
Alignment explanation
Indices: 21806126--21806150 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21806116 ATTTTATAAC
21806126 ATAAATATTGTT
1 ATAAATATTGTT
21806138 ATAAATATTGTT
1 ATAAATATTGTT
21806150 A
1 A
21806151 ATAGCCCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:21809567 original size:68 final size:69
Alignment explanation
Indices: 21809486--21809617 Score: 180
Period size: 68 Copynumber: 1.9 Consensus size: 69
21809476 ATTAATCCAA
* *
21809486 TGCACTAATTTATATTA-AGGGTAAA-ATCTTTTATAGATAAAAATATAAATTAATTAAAT-TAT
1 TGCACTAAATTATATTATA-GATAAATAT-TTTTATAGATAAAAATATAAATTAATTAAATGTAT
21809548 TATATG
64 TATATG
* * *
21809554 TGCACTAAATTATATTATATATAAATATTTTTATATATAAAAATATGAATTAATTAAATGTATT
1 TGCACTAAATTATATTATAGATAAATATTTTTATAGATAAAAATATAAATTAATTAAATGTATT
21809618 TTTTAATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
68 49 0.88
69 7 0.12
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (69 bp):
TGCACTAAATTATATTATAGATAAATATTTTTATAGATAAAAATATAAATTAATTAAATGTATTA
TATG
Found at i:21810537 original size:31 final size:31
Alignment explanation
Indices: 21810499--21810566 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
21810489 AAAATATTAA
21810499 ATGTTTAGGGACTTTTCATGAATGGGTTTGT
1 ATGTTTAGGGACTTTTCATGAATGGGTTTGT
21810530 ATGTTTAGGGACTTTTCATGAATGGGTTTGT
1 ATGTTTAGGGACTTTTCATGAATGGGTTTGT
21810561 AGTGTT
1 A-TGTT
21810567 ATTGAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.46
Consensus pattern (31 bp):
ATGTTTAGGGACTTTTCATGAATGGGTTTGT
Found at i:21811269 original size:41 final size:41
Alignment explanation
Indices: 21811212--21811383 Score: 245
Period size: 41 Copynumber: 4.2 Consensus size: 41
21811202 TTTCTGAATC
* * * *
21811212 AATGAAAAGGTTGAAAAGAAAGTTATCCGAAAAGGATAAAA
1 AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGAATAACA
21811253 AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGAATAACA
1 AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGAATAACA
* *
21811294 AATGAAAATGTTGAAAAGGATGTTATCCAAAAAGAATAACA
1 AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGAATAACA
* * * * *
21811335 AATGAAAATGTTGAAAACGATGTTATCTGAAAAGGATAACG
1 AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGAATAACA
21811376 AATGAAAA
1 AATGAAAA
21811384 AGAAGTGTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 120 1.00
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.20
Consensus pattern (41 bp):
AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGAATAACA
Found at i:21828339 original size:11 final size:9
Alignment explanation
Indices: 21828316--21828366 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
21828306 AGGTATTTTT
21828316 AAAATT-TA
1 AAAATTATA
*
21828324 AAATTTATTA
1 AAAATTA-TA
21828334 AAAATTATA
1 AAAATTATA
21828343 AAAATTATA
1 AAAATTATA
21828352 AACAATTTATA
1 AA-AA-TTATA
21828363 AAAA
1 AAAA
21828367 AGAATTATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 5 0.14
9 13 0.35
10 12 0.32
11 7 0.19
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:21828812 original size:19 final size:19
Alignment explanation
Indices: 21828788--21828824 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21828778 TTCGTAAAGT
* *
21828788 AATTTTACTTACTAAAATG
1 AATTTTAATTAATAAAATG
21828807 AATTTTAATTAATAAAAT
1 AATTTTAATTAATAAAAT
21828825 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (19 bp):
AATTTTAATTAATAAAATG
Found at i:21830646 original size:7 final size:7
Alignment explanation
Indices: 21830636--21830701 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
21830626 AAAGTTAAAA
21830636 TATATAT
1 TATATAT
21830643 TATAATAT
1 TAT-ATAT
21830651 TATAATAT
1 TAT-ATAT
*
21830659 TATATCT
1 TATATAT
21830666 TA-ATTAT
1 TATA-TAT
21830673 TAAGTATAT
1 T-A-TATAT
21830682 ATATTATAT
1 -TA-TATAT
21830691 TATATAT
1 TATATAT
21830698 TATA
1 TATA
21830702 ATAATAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:21830652 original size:8 final size:8
Alignment explanation
Indices: 21830639--21830704 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
21830629 GTTAAAATAT
21830639 ATATTATA
1 ATATTATA
21830647 ATATTATA
1 ATATTATA
21830655 ATATTAT-
1 ATATTATA
*
21830662 ATCTTA-A
1 ATATTATA
*
21830669 TTATTA-A
1 ATATTATA
*
21830676 GTATATATATT
1 --ATAT-TATA
21830687 ATATTAT-
1 ATATTATA
21830694 ATATTATA
1 ATATTATA
21830702 ATA
1 ATA
21830705 ATAAAATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:21830671 original size:27 final size:26
Alignment explanation
Indices: 21830636--21830704 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
21830626 AAAGTTAAAA
21830636 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
21830664 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
21830691 TATATATTATAATA
1 TATATATTATAATA
21830705 ATAAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:21830770 original size:11 final size:11
Alignment explanation
Indices: 21830712--21830795 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
21830702 ATAATAAAAT
*
21830712 AAAAGAAATAGA
1 AAAAGAAAGA-A
21830724 AAAAGAAAGAA
1 AAAAGAAAGAA
* *
21830735 AGAACAAACG-A
1 AAAAGAAA-GAA
* * *
21830746 AACAGAAGGGA
1 AAAAGAAAGAA
21830757 AAAAGAAAGAA
1 AAAAGAAAGAA
*
21830768 AAAGGAAAGAA
1 AAAAGAAAGAA
*
21830779 AATGAGAAAGAA
1 AA-AAGAAAGAA
*
21830791 CAAAG
1 AAAAG
21830796 CTAGGGGTTT
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
10 1 0.02
11 35 0.65
12 18 0.33
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:21830787 original size:29 final size:29
Alignment explanation
Indices: 21830729--21830787 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
21830719 ATAGAAAAAG
* *
21830729 AAAGAAAGAACAAACGAAACAGAAGGGAA
1 AAAGAAAGAACAAACGAAACAAAAGAGAA
* *
21830758 AAAGAAAGAA-AAAGGAAAGAAAATGAGAA
1 AAAGAAAGAACAAACGAAACAAAA-GAGAA
21830787 A
1 A
21830788 GAACAAAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.69, C:0.05, G:0.24, T:0.02
Consensus pattern (29 bp):
AAAGAAAGAACAAACGAAACAAAAGAGAA
Found at i:21831715 original size:41 final size:41
Alignment explanation
Indices: 21831669--21831748 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
21831659 CGACTTCGAG
21831669 TCAATGAGACACTGGATGTCAATTTACTACTTCGAATTAAT
1 TCAATGAGACACTGGATGTCAATTTACTACTTCGAATTAAT
* *
21831710 TCAATGAGGCACTGGATGTCAATTTATTACTTCGAATTA
1 TCAATGAGACACTGGATGTCAATTTACTACTTCGAATTA
21831749 TCCGATGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (41 bp):
TCAATGAGACACTGGATGTCAATTTACTACTTCGAATTAAT
Found at i:21833616 original size:3 final size:3
Alignment explanation
Indices: 21833608--21833634 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21833598 ATGAATTAAG
21833608 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
21833635 TTTTTTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:21835089 original size:50 final size:49
Alignment explanation
Indices: 21834987--21835277 Score: 260
Period size: 50 Copynumber: 5.8 Consensus size: 49
21834977 GGTAAAGAGA
*
21834987 TCCCATGAAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATGA-AAG
* *
21835043 TCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGA-AAG
* * * *
21835093 TCCCATGGAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAA-G
** * * * * *
21835143 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGTAAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAG
* * * * * * * *
21835192 TCCCATGTAAGACCATATCTAGGATATGGAATTGGCAGT-ACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAA-G
* * *
21835241 TTCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21835278 TGTTATTATC
Statistics
Matches: 197, Mismatches: 36, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
48 5 0.03
49 63 0.32
50 89 0.45
53 4 0.02
55 1 0.01
56 35 0.18
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAG
Found at i:21837428 original size:3 final size:3
Alignment explanation
Indices: 21837420--21837451 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
21837410 ATCTTTCATG
21837420 TAT TAT TAT TAT TAT TAT TA- TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21837452 TATTGTATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:21839271 original size:30 final size:31
Alignment explanation
Indices: 21839237--21839294 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
21839227 TAGTGATTTA
*
21839237 AATAAAAA-TTTCGAATAGTTCAATGACTTT
1 AATAAAAACTTTCGAATAATTCAATGACTTT
*
21839267 AATAAAAACTTTTGAATAATTCAATGAC
1 AATAAAAACTTTCGAATAATTCAATGAC
21839295 CATTTTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (31 bp):
AATAAAAACTTTCGAATAATTCAATGACTTT
Found at i:21839633 original size:25 final size:26
Alignment explanation
Indices: 21839588--21839636 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
21839578 GGCCCGGCCC
*
21839588 ATTTTTAAAATAAATACCAAAAATGT
1 ATTTTAAAAATAAATACCAAAAATGT
21839614 ATTTTAAAAATTAAA-A-CAAAAAT
1 ATTTTAAAAA-TAAATACCAAAAAT
21839637 TAAAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 10 0.48
27 4 0.19
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (26 bp):
ATTTTAAAAATAAATACCAAAAATGT
Found at i:21839692 original size:40 final size:39
Alignment explanation
Indices: 21839613--21839761 Score: 185
Period size: 40 Copynumber: 3.7 Consensus size: 39
21839603 ACCAAAAATG
21839613 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATT-AAAAAAGTATTTTAAAAA
21839657 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAGTA-TTTTAAAAA
* * *
21839697 -AATTTAAAATTTAAAAAATTTAAAAAAGTATTTTAAAAT
1 TATTTTAAAA-TTAAAAAAATTAAAAAAGTATTTTAAAAA
*
21839736 TATTTTAAAA-TAAAAAAATAAAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAA
21839762 TTTATTATAT
Statistics
Matches: 96, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
38 14 0.15
39 25 0.26
40 43 0.45
41 2 0.02
43 6 0.06
44 6 0.06
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:21843161 original size:124 final size:124
Alignment explanation
Indices: 21842941--21843290 Score: 612
Period size: 124 Copynumber: 2.8 Consensus size: 124
21842931 TTATTTCGAG
* *
21842941 TTGACGTTTCTG-GTCAAATTGTATAAAATCGCTTCTACCTGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAGT-AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
21843005 GAAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
65 GAAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * *
21843065 TTGACGTTTCTGAGTAAATAGTATAAAATTGCTTCTACGAGGATGCTATTTGAGTAGAAATTGTG
1 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
21843130 AAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
21843189 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
21843254 AAATCACGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAG
21843291 CAAGTTTGAG
Statistics
Matches: 214, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
124 212 0.99
125 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCAATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:21845158 original size:12 final size:12
Alignment explanation
Indices: 21845141--21845166 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21845131 CTGAGATTTC
21845141 TTTCTCTCTAGG
1 TTTCTCTCTAGG
21845153 TTTCTCTCTAGG
1 TTTCTCTCTAGG
21845165 TT
1 TT
21845167 AAGGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.15, T:0.54
Consensus pattern (12 bp):
TTTCTCTCTAGG
Found at i:21846507 original size:45 final size:45
Alignment explanation
Indices: 21846456--21846546 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
21846446 AAACATCAAA
*
21846456 ACATTTTACCAAATCTAACATTATGTAAAAGTATGTAAAATTATT
1 ACATTTTACCAAATCTAACATTATGTAAAAATATGTAAAATTATT
21846501 ACATTTTACCAAATCTAACATTATGTAAAAATATGTAAAATTATT
1 ACATTTTACCAAATCTAACATTATGTAAAAATATGTAAAATTATT
21846546 A
1 A
21846547 AGCCAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.37
Consensus pattern (45 bp):
ACATTTTACCAAATCTAACATTATGTAAAAATATGTAAAATTATT
Found at i:21846637 original size:55 final size:55
Alignment explanation
Indices: 21846528--21846683 Score: 242
Period size: 55 Copynumber: 2.8 Consensus size: 55
21846518 ACATTATGTA
* ** *
21846528 AAAATATGTAAAATTATTAAG-CCAAAAAAATTTTGTTAATTTTTAGTAATATTATC
1 AAAATATGTAAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTAGTAAAATTATC
21846584 AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
21846639 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAG
1 AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAG
21846684 GGTTTTTAAT
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
55 71 0.76
56 21 0.22
57 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (55 bp):
AAAATATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:21846741 original size:58 final size:58
Alignment explanation
Indices: 21846678--21847503 Score: 552
Period size: 58 Copynumber: 15.4 Consensus size: 58
21846668 TTGTGTTAAT
* **
21846678 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAGTTAATTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21846736 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * * **
21846794 GGTTAGGGTTTTTAATT--A--AG-TTA--GTTA--ATTGTTAGTAAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21846842 -G----GGTTTTTAATTAACTTAGTTTAGGGTTAGGTTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATT-AA--A--TTA-GGTTAG
* *
21846901 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * * * **
21846959 AGTTAGGGTTTTTAATT--A--AG-TTA--GTTA--ATTGTTAGTAAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
21847007 -G----GGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * * *
21847060 GATTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGGTTTTTTATTAAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
*
21847118 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT--A--A-GTTA-
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * * ** **
21847170 -GTTA--ATTGTTAGTAAAATTAAATTAGGGTT----TTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTT--TT-AATTAAATTA-GGTTAG
*
21847225 GG-T-----TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * * **
21847277 GATTAGGGTTTTTAATTAAATTAG-TTA-----A---TTGTTAGTAAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
21847325 -G----GGTTTTTAATTAAATTAGTTTAGGGTTA-GGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* * * * **
21847377 GGTTAGAGTTTTTAATTAAATTAG-TTA-----A---TTGTTAGTAAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
21847425 -G----GGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21847478 GGTTAGAGTTTTTAATTAAGTTAGTT
1 GGTTAGGGTTTTTAATTAAATTAGTT
21847504 AATTGTTAGT
Statistics
Matches: 600, Mismatches: 82, Indels: 172
0.70 0.10 0.20
Matches are distributed among these distances:
43 57 0.09
44 6 0.01
45 4 0.01
47 9 0.01
48 10 0.02
49 82 0.14
50 8 0.01
51 28 0.05
52 64 0.11
53 22 0.04
54 12 0.02
55 2 0.00
56 10 0.02
57 23 0.04
58 219 0.37
59 3 0.00
60 1 0.00
61 1 0.00
63 2 0.00
64 37 0.06
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (58 bp):
GGTTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:21846929 original size:101 final size:98
Alignment explanation
Indices: 21846738--21847107 Score: 282
Period size: 101 Copynumber: 3.8 Consensus size: 98
21846728 TAATTTAGGG
21846738 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
21846803 TTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAA
66 TTTT-ATTAAGTTA--TAATTGTTAGTAAAATTAAA
* * *
21846839 TTAGGGTTTTTAATTAACTTAGTTTAGGGTTAGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
* **
21846904 TAGGGTTT-TTAA-TTA-AA---TTAG----GTTAGGG
66 T----TTTATTAAGTTATAATTGTTAGTAAAATTA-AA
* * * **
21846932 TTAGGGTTTTTAATTAAATTAGTTTAGAGTTAGGGTTTTTAATTAAGTTA-GTTAATTGTTA--G
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAGGG
*** * *** * * **
21846994 -TAAAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGG
65 TTTTTATTAAGTTATAATTGTT-AGTAAA--A--TTA-AA
* *
21847033 TTAGGGTTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-
21847098 TTTTTATTAA
65 TTTTTATTAA
21847108 ATTAAGTTAG
Statistics
Matches: 214, Mismatches: 29, Indels: 48
0.74 0.10 0.16
Matches are distributed among these distances:
87 4 0.02
88 3 0.01
90 1 0.00
91 1 0.00
92 8 0.04
93 52 0.24
96 4 0.02
99 2 0.01
101 119 0.56
102 6 0.03
103 5 0.02
105 9 0.04
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (98 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTATTAAGTTATAATTGTTAGTAAAATTAAA
Found at i:21846939 original size:136 final size:130
Alignment explanation
Indices: 21846709--21847083 Score: 450
Period size: 130 Copynumber: 2.8 Consensus size: 130
21846699 TAGTTTAGGG
*
21846709 TTAGGGTTTTTAATTAAGTTAATTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAACTTAATTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
*
21846774 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAA
66 TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
* *
21846839 TTAGGGTTTTTAATTAACTTAGTTTAGGGTTAGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAACTTAATTTAGGGTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGT
* ** ***
21846904 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTTAGAGTTAG-GGT
60 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAA
* *
21846968 TTTTAA
125 ATTAAA
* * * * * * ** *
21846974 TTA-AGTTAGTTAATTGTTAGTAAAATTA-AATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAG
1 TTAGGGTT-TTTAA-T-TAACTTAATTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
*
21847037 GGTTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAG
63 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
21847084 GTTAGGGTTG
Statistics
Matches: 212, Mismatches: 24, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
130 98 0.46
131 5 0.02
133 2 0.01
134 3 0.01
135 16 0.08
136 81 0.38
137 7 0.03
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (130 bp):
TTAGGGTTTTTAATTAACTTAATTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
Found at i:21847033 original size:188 final size:190
Alignment explanation
Indices: 21846678--21847483 Score: 767
Period size: 188 Copynumber: 4.2 Consensus size: 190
21846668 TTGTGTTAAT
* *
21846678 GGTTAGGGTTTTTAATTAAATTA-G-T----TTAGGGTTAGGGTTTTTAATTAAGTTAATTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGG
* **
21846737 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAGG
66 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GTTAATTGTTA--
** * * * * ** * *
21846801 GTTTTTAATTAAGTTA-GTTAATTGTTAGTAAAATTA--AATTAGGGTTTTTAATTAACTTAGTT
128 G--TAAAATTAAATTAGGGT--TT-TTAATTAAATTAGTTGTTAGGGTTTTTAATTAAATTAGGT
21846863 TAG
188 TAG
* *
21846866 GGTTAGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGG
* *
21846931 GTTAGGGTTTTTAATTAAATTAGTTTAGAGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTA
66 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTA
21846996 AAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
131 AAATTAAATTAGGGTTTTTAATTAAATTAG-TT---GTTAGGGTTTTTAATTAAATTAGGTTAG
* *
21847060 GATTAGGGTTTTTAATTAAATTAGGTTAGGGTT---G---GGGTTTTTTATTAAATTAAGTTAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGG
21847119 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTA
66 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTA
21847184 AAATTAAATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
131 AAATTAAATTAGGGTTTTTAATTAAATTA-GTT---GTTAGGGTTTTTAATTAAATTAGGTTAG
* ** * *
21847248 GGTTAGGGTTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTA-ATTAAATTAGTTAATTGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG---TTAGGGT---TT--TTAA-T-TAAA
* * ** * *
21847312 TAAAATTA-AATTAGGGTTTTTAATTAAATTAGTTTAGGGTTA-GGTTTTTAATTAAATTAGGTT
56 TTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GTT
** ** * * * **
21847375 -AGGGTTAGAGTTTTTAATTAAATTA-GTTAATTGTTAGTAAAATTA--AATTAGGGTTTTTAAT
120 AATTGTT--AG--TAAAATTAAATTAGGGT--TT-TTAATTAAATTAGTTGTTAGGGTTTTTAAT
*
21847436 TAAATTAGTTTAG
178 TAAATTAGGTTAG
21847449 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
21847484 AGTTTTTAAT
Statistics
Matches: 530, Mismatches: 49, Indels: 65
0.82 0.08 0.10
Matches are distributed among these distances:
188 211 0.40
189 4 0.01
190 11 0.02
191 4 0.01
192 1 0.00
193 3 0.01
194 140 0.26
196 1 0.00
199 2 0.00
201 83 0.16
202 35 0.07
203 10 0.02
204 2 0.00
205 11 0.02
206 2 0.00
207 10 0.02
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (190 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGG
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTA
AAATTAAATTAGGGTTTTTAATTAAATTAGTTGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:21847195 original size:130 final size:129
Alignment explanation
Indices: 21847061--21847400 Score: 599
Period size: 130 Copynumber: 2.6 Consensus size: 129
21847051 TTAGGTTAGG
* *
21847061 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGGTTTTTTATTAAATTAAGTTAGGGTTAGGG
1 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTT-GGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
* *
21847126 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAA
65 TTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
21847191 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
1 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTT-GGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
21847256 TTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
65 TTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
* * *
21847321 ATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
1 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
21847386 TTTTAATTAAATTAG
66 TTTTAATTAAATTAG
21847401 TTAATTGTTA
Statistics
Matches: 202, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
129 46 0.23
130 156 0.77
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (129 bp):
ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
Found at i:21847207 original size:72 final size:72
Alignment explanation
Indices: 21847120--21847472 Score: 317
Period size: 72 Copynumber: 4.7 Consensus size: 72
21847110 TAAGTTAGGG
*
21847120 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAA
21847185 AATTAAA
66 AATTAAA
21847192 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GTTA-----A---T
* * *
21847257 TTTTAATTAAATTAGGTTAGGA
57 TGTT-AGTAAA--A--TTA-AA
** ** * *
21847279 TTAGGGTTTTTAATTAAATTA-GTTAATTGTTA--G--TAAAATTAAATTAGGGT--TT-TTAAT
1 TTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAGGGTTTTTAATTAAATTA-GTTAATTGTTAGT
* **
21847336 TAAATTAGT
64 AAAATTAAA
*
21847345 TTAGGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGTTAATTGTT
1 TTA--G---GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAATTGTT
21847410 AGTAAAATTAAA
61 AGTAAAATTAAA
*
21847422 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
21847473 GTTAGGGTTA
Statistics
Matches: 229, Mismatches: 23, Indels: 58
0.74 0.07 0.19
Matches are distributed among these distances:
66 4 0.02
67 3 0.01
68 1 0.00
69 1 0.00
71 26 0.11
72 99 0.43
73 7 0.03
74 2 0.01
75 12 0.05
76 2 0.01
77 13 0.06
78 1 0.00
81 4 0.02
82 5 0.02
83 14 0.06
84 1 0.00
85 1 0.00
86 6 0.03
87 27 0.12
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (72 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAA
AATTAAA
Found at i:21847326 original size:43 final size:43
Alignment explanation
Indices: 21847278--21847445 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
21847268 TTAGGTTAGG
21847278 ATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
1 ATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
* * *
21847321 ATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGTTTTTAATTAAATTAGGTTAGG
1 ATTAGGGTTTTTAATTAAATTAG-TTA-----A--TTGTT-AGTAAA--A--TTA-A
* *
21847378 GTTAGAGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
1 ATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
21847421 ATTAGGGTTTTTAATTAAATTAGTT
1 ATTAGGGTTTTTAATTAAATTAGTT
21847446 TAGGGTTAGG
Statistics
Matches: 101, Mismatches: 10, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
43 46 0.46
44 6 0.06
46 1 0.01
48 5 0.05
49 5 0.05
51 5 0.05
52 5 0.05
54 1 0.01
56 6 0.06
57 21 0.21
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (43 bp):
ATTAGGGTTTTTAATTAAATTAGTTAATTGTTAGTAAAATTAA
Found at i:21847360 original size:29 final size:28
Alignment explanation
Indices: 21847326--21847402 Score: 136
Period size: 28 Copynumber: 2.7 Consensus size: 28
21847316 ATTAAATTAG
21847326 GGTTTTTAATTAAATTAGTTTAGGGTTA
1 GGTTTTTAATTAAATTAGTTTAGGGTTA
*
21847354 GGTTTTTAATTAAATTAGGTTAGGGTTA
1 GGTTTTTAATTAAATTAGTTTAGGGTTA
21847382 GAGTTTTTAATTAAATTAGTT
1 G-GTTTTTAATTAAATTAGTT
21847403 AATTGTTAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 28 0.61
29 18 0.39
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (28 bp):
GGTTTTTAATTAAATTAGTTTAGGGTTA
Found at i:21847375 original size:100 final size:101
Alignment explanation
Indices: 21847221--21847534 Score: 585
Period size: 101 Copynumber: 3.1 Consensus size: 101
21847211 TAGGTTAGGG
* * *
21847221 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGATTAGGGT
1 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
21847286 TTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
66 TTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
21847322 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTA-GGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
1 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
21847386 TTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
66 TTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
21847422 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
1 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
*
21847487 TTTTAATTAAGTTAGTTAATTGTTAGTAAAATTAAA
66 TTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
21847523 TTAGGGTTTTTA
1 TTAGGGTTTTTA
21847535 TGACATCAAA
Statistics
Matches: 208, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
100 98 0.47
101 110 0.53
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (101 bp):
TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
TTTTAATTAAATTAGTTAATTGTTAGTAAAATTAAA
Found at i:21847410 original size:29 final size:27
Alignment explanation
Indices: 21846678--21847504 Score: 487
Period size: 29 Copynumber: 31.0 Consensus size: 27
21846668 TTGTGTTAAT
21846678 GGTTAGGGTTTTTAATTAAATTAGTTTAG
1 GGTTA-GGTTTTTAATTAAATTAG-TTAG
* *
21846707 GGTTAGGGTTTTTAATTAAGTTAATTTAG
1 GGTTA-GGTTTTTAATTAAATT-AGTTAG
21846736 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
21846765 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
21846794 GGTTAGGGTTTTTAATT--A--AGTTA-
1 GGTTA-GGTTTTTAATTAAATTAGTTAG
* * * * *
21846817 -GTTA-ATTGTTAGTAAAATTAAATTA-
1 GGTTAGGTTTTTAATTAAATT-AGTTAG
*
21846842 -G---GGTTTTTAATTAACTTAGTTTAG
1 GGTTAGGTTTTTAATTAAATTAG-TTAG
21846866 GGTTAGGTTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGG-TTTTTAATT-AA--A--TTA--GTTAG
21846901 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
21846930 GGTTAGGGTTTTTAATTAAATTAGTTTAG
1 GGTTA-GGTTTTTAATTAAATTAG-TTAG
*
21846959 AGTTAGGGTTTTTAATT--A--AGTTA-
1 GGTTA-GGTTTTTAATTAAATTAGTTAG
* * * * *
21846982 -GTTA-ATTGTTAGTAAAATTAAATTA-
1 GGTTAGGTTTTTAATTAAATT-AGTTAG
21847007 -G---GGTTTTTAATTAAATTAGTTTAG
1 GGTTAGGTTTTTAATTAAATTAG-TTAG
21847031 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
*
21847060 GATTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
* *
21847089 GGTTGGGGTTTTTTATTAAATTAAGTTAG
1 GGTT-AGGTTTTTAATTAAATT-AGTTAG
21847118 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
21847147 GGTTAGGGTTTTTAATT--A--AGTTA-
1 GGTTA-GGTTTTTAATTAAATTAGTTAG
* * * * *
21847170 -GTTA-ATTGTTAGTAAAATTAAATTA-
1 GGTTAGGTTTTTAATTAAATT-AGTTAG
21847195 -G---GGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGTTTTTAATTAAATTA-GTTAG
21847219 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
21847248 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
*
21847277 GATTAGGGTTTTTAATTAAATTAGTTA-
1 GGTTA-GGTTTTTAATTAAATTAGTTAG
* * * *
21847304 ----A--TTGTTAGTAAAATTAAATTA-
1 GGTTAGGTTTTTAATTAAATT-AGTTAG
21847325 -G---GGTTTTTAATTAAATTAGTTTAG
1 GGTTAGGTTTTTAATTAAATTAG-TTAG
21847349 GGTTAGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGTTTTTAATTAAATTA-GTTAG
21847377 GGTTAGAGTTTTTAATTAAATTAGTTA-
1 GGTTAG-GTTTTTAATTAAATTAGTTAG
* * * *
21847404 ----A--TTGTTAGTAAAATTAAATTA-
1 GGTTAGGTTTTTAATTAAATT-AGTTAG
21847425 -G---GGTTTTTAATTAAATTAGTTTAG
1 GGTTAGGTTTTTAATTAAATTAG-TTAG
21847449 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTA-GGTTTTTAATTAAATTA-GTTAG
*
21847478 GGTTAGAGTTTTTAATTAAGTTAGTTA
1 GGTTAG-GTTTTTAATTAAATTAGTTA
21847505 ATTGTTAGTA
Statistics
Matches: 657, Mismatches: 61, Indels: 161
0.75 0.07 0.18
Matches are distributed among these distances:
20 40 0.06
21 8 0.01
22 20 0.03
23 71 0.11
24 11 0.02
25 24 0.04
27 3 0.00
28 45 0.07
29 399 0.61
30 9 0.01
32 1 0.00
34 5 0.01
35 18 0.03
36 3 0.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (27 bp):
GGTTAGGTTTTTAATTAAATTAGTTAG
Found at i:21847435 original size:130 final size:128
Alignment explanation
Indices: 21847061--21847501 Score: 492
Period size: 130 Copynumber: 3.4 Consensus size: 128
21847051 TTAGGTTAGG
* * *
21847061 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGGTTTTTTATTAAATTAAGTTAGGGTTAGGG
1 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTT-AGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
** ** *
21847126 TTTTTAATTAAATTAGGTT-AGGGTTAGGGTTTTTAATTAAGTTAG--TTAATTGTTAGTAAAAT
65 TTTTTAATTAAATTAGGTTAATTGTTA--G--TAAAATTAAATTAGTTTTAATTGTTAGTAAAAT
21847188 TAA
126 TAA
21847191 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
1 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-GGTTTTTAATTAAATTAGGTTAGGGTTAGGG
**
21847256 TTTTTAATTAAATTAGGTTAGGATTAGGGTT--TTTAATTAAATTAG--TTAATTGTTAGTAAAA
65 TTTTTAATTAAATTAGGTTA--ATT---GTTAGTAAAATTAAATTAGTTTTAATTGTTAGTAAAA
21847317 TTAA
125 TTAA
* *
21847321 ATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTAGAGT
1 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
*
21847386 TTTTAATTAAATTA-GTTAATTGTTAGTAAAATTAAATTAGGGTTTTTAATTAAATTAGT----T
66 TTTTAATTAAATTAGGTTAATTGTTAGTAAAATTAAATTA--G-TTTTAATT--GTTAGTAAAAT
*
21847446 TAGG
126 TA-A
* *
21847450 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTTAG
1 ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG-GTTTTTAATTAAATTAG
21847502 TTAATTGTTA
Statistics
Matches: 278, Mismatches: 15, Indels: 36
0.84 0.05 0.11
Matches are distributed among these distances:
123 3 0.01
125 11 0.04
126 3 0.01
127 1 0.00
128 7 0.03
129 77 0.28
130 167 0.60
132 5 0.02
133 1 0.00
136 3 0.01
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (128 bp):
ATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTAATTAAATTAGGTTAATTGTTAGTAAAATTAAATTAGTTTTAATTGTTAGTAAAATTAA
Found at i:21848021 original size:18 final size:18
Alignment explanation
Indices: 21847983--21848022 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21847973 ATTTCGGAAA
* *
21847983 AGGATACATGTAAGAGTT
1 AGGATACATATAAGAGCT
*
21848001 AGGATACATATAAGGGCT
1 AGGATACATATAAGAGCT
21848019 AGGA
1 AGGA
21848023 AACACACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:21849793 original size:31 final size:31
Alignment explanation
Indices: 21849758--21849821 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
21849748 GCCATTGATG
*
21849758 AAAATATAAGAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
21849789 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
21849820 AA
1 AA
21849822 TGAAATTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:21849815 original size:10 final size:10
Alignment explanation
Indices: 21849758--21849809 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
21849748 GCCATTGATG
* *
21849758 AAAATATAAG
1 AAAATTTAAA
21849768 AAAATTTAAA
1 AAAATTTAAA
* *
21849778 ATTATTTTAAA
1 A-AAATTTAAA
*
21849789 AAAATATAAA
1 AAAATTTAAA
21849799 AAAATTTAAA
1 AAAATTTAAA
21849809 A
1 A
21849810 TTATTTTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
10 25 0.76
11 8 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:21849882 original size:51 final size:51
Alignment explanation
Indices: 21849812--21849937 Score: 189
Period size: 51 Copynumber: 2.5 Consensus size: 51
21849802 ATTTAAAATT
* * *
21849812 ATTTTAAAAATGAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGA
1 ATTTT-AAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGA
*
21849864 ATTTTAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGA
1 ATTTTAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGA
**
21849915 ATTTTGGAAGGAAATTGAGAGGA
1 ATTTTAAAAGGAAATTGAGAGGA
21849938 TTAGAGATGA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 63 0.93
52 5 0.07
ACGTcount: A:0.44, C:0.01, G:0.25, T:0.29
Consensus pattern (51 bp):
ATTTTAAAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGA
Found at i:21853013 original size:24 final size:24
Alignment explanation
Indices: 21852986--21853045 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
21852976 TCAAAATCTG
* *
21852986 AAAAGTATTAAGA-TTAAATTCTTA
1 AAAAGTATAAAAACTTAAATTC-TA
*
21853010 AAAA-TAAAAAAACTTAAATTCTA
1 AAAAGTATAAAAACTTAAATTCTA
*
21853033 AAAAGTATGAAAA
1 AAAAGTATAAAAA
21853046 GTAGAATAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (24 bp):
AAAAGTATAAAAACTTAAATTCTA
Found at i:21861154 original size:22 final size:22
Alignment explanation
Indices: 21861129--21861180 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
21861119 GGGAGAACAA
** *
21861129 TTCATGTTTCATGTTTCATGTT
1 TTCATGTTTCATACTGCATGTT
21861151 TTCATGTTTCATACTGCATGTT
1 TTCATGTTTCATACTGCATGTT
21861173 TT-ATGTTT
1 TTCATGTTT
21861181 TCTTCTGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.58
Consensus pattern (22 bp):
TTCATGTTTCATACTGCATGTT
Found at i:21861155 original size:15 final size:14
Alignment explanation
Indices: 21861129--21861162 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
21861119 GGGAGAACAA
21861129 TTCATGTTTCATGT
1 TTCATGTTTCATGT
21861143 TTCATGTTTTCATGT
1 TTCATG-TTTCATGT
21861158 TTCAT
1 TTCAT
21861163 ACTGCATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (14 bp):
TTCATGTTTCATGT
Found at i:21861179 original size:7 final size:7
Alignment explanation
Indices: 21861129--21861162 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
21861119 GGGAGAACAA
21861129 TTCATGT
1 TTCATGT
21861136 TTCATGT
1 TTCATGT
21861143 TTCATGTT
1 TTCATG-T
21861151 TTCATGT
1 TTCATGT
21861158 TTCAT
1 TTCAT
21861163 ACTGCATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (7 bp):
TTCATGT
Found at i:21861812 original size:17 final size:17
Alignment explanation
Indices: 21861792--21861889 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
21861782 ATTTCAAGAC
21861792 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
21861809 TTATATAGTGATTCAAAAA
1 TTATGTAATG-TT-TTTAA
21861828 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
21861846 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
21861865 CTTATGTAATGTTTTTAG
1 -TTATGTAATGTTTTTAA
21861883 TTATGTA
1 TTATGTA
21861890 GTGATTCAAA
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.43
18 7 0.12
19 8 0.14
20 17 0.30
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:21861831 original size:37 final size:37
Alignment explanation
Indices: 21861787--21861970 Score: 305
Period size: 37 Copynumber: 4.9 Consensus size: 37
21861777 TGTTAATTTC
*
21861787 AAGACTTATGTAATGTTTTTAATTATATAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
21861824 AAAACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
21861861 AAGACTTATGTAATGTTTTTAGTTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
21861898 AAGACTTATGTAATTTTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAA-TGTTTTTAATTATGTAGTGATTCA
* *
21861936 AAGACTTATGTAATTTTTTTAATTATATAGTGATT
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATT
21861971 TAAATCGGTT
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
37 104 0.75
38 35 0.25
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:21861865 original size:74 final size:75
Alignment explanation
Indices: 21861787--21861970 Score: 316
Period size: 75 Copynumber: 2.5 Consensus size: 75
21861777 TGTTAATTTC
21861787 AAGACTTATGTAATGTTTTTAATTATATAGTGATTCAAAAACTTATGTAA-TGTTTTTAATTATG
1 AAGACTTATGTAATGTTTTTAATTATATAGTGATTCAAAAACTTATGTAATTGTTTTTAATTATG
21861851 TAGTGATTCA
66 TAGTGATTCA
* * * *
21861861 AAGACTTATGTAATGTTTTTAGTTATGTAGTGATTCAAAGACTTATGTAATTTTTTTTAATTATG
1 AAGACTTATGTAATGTTTTTAATTATATAGTGATTCAAAAACTTATGTAATTGTTTTTAATTATG
21861926 TAGTGATTCA
66 TAGTGATTCA
*
21861936 AAGACTTATGTAATTTTTTTAATTATATAGTGATT
1 AAGACTTATGTAATGTTTTTAATTATATAGTGATT
21861971 TAAATCGGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 47 0.46
75 55 0.54
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (75 bp):
AAGACTTATGTAATGTTTTTAATTATATAGTGATTCAAAAACTTATGTAATTGTTTTTAATTATG
TAGTGATTCA
Found at i:21861989 original size:9 final size:9
Alignment explanation
Indices: 21861970--21862088 Score: 143
Period size: 9 Copynumber: 13.4 Consensus size: 9
21861960 ATATAGTGAT
21861970 TTAAATCGG
1 TTAAATCGG
* *
21861979 TTAAGTAGG
1 TTAAATCGG
21861988 TTAAATCGG
1 TTAAATCGG
*
21861997 TTAAGTCGG
1 TTAAATCGG
*
21862006 TTAAATAGG
1 TTAAATCGG
* *
21862015 TTAAAACAG
1 TTAAATCGG
21862024 TTAAATCGG
1 TTAAATCGG
* *
21862033 TTAAGTTGG
1 TTAAATCGG
21862042 TTAAATCGG
1 TTAAATCGG
21862051 TT-AATCGG
1 TTAAATCGG
21862059 TT-AATCGG
1 TTAAATCGG
*
21862067 TTAAATAGG
1 TTAAATCGG
21862076 TTAAATCGG
1 TTAAATCGG
21862085 TTAA
1 TTAA
21862089 TTTTTAACAA
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
8 16 0.18
9 75 0.82
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (9 bp):
TTAAATCGG
Found at i:21862000 original size:27 final size:27
Alignment explanation
Indices: 21861970--21862088 Score: 161
Period size: 27 Copynumber: 4.5 Consensus size: 27
21861960 ATATAGTGAT
21861970 TTAAATCGGTTAAGTAGGTTAAATCGG
1 TTAAATCGGTTAAGTAGGTTAAATCGG
* * * *
21861997 TTAAGTCGGTTAAATAGGTTAAAACAG
1 TTAAATCGGTTAAGTAGGTTAAATCGG
*
21862024 TTAAATCGGTTAAGTTGGTTAAATCGG
1 TTAAATCGGTTAAGTAGGTTAAATCGG
* *
21862051 TT-AATCGGTTAA-TCGGTTAAATAGG
1 TTAAATCGGTTAAGTAGGTTAAATCGG
21862076 TTAAATCGGTTAA
1 TTAAATCGGTTAA
21862089 TTTTTAACAA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 13 0.16
26 20 0.25
27 47 0.59
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (27 bp):
TTAAATCGGTTAAGTAGGTTAAATCGG
Found at i:21862622 original size:36 final size:36
Alignment explanation
Indices: 21862573--21862694 Score: 127
Period size: 36 Copynumber: 3.3 Consensus size: 36
21862563 ATTAAATGTG
*
21862573 TGTGCCCAACACTAGTTGGATAACCCAACAAAGATT
1 TGTGCCCAACACTAGTCGGATAACCCAACAAAGATT
* * * ** * *
21862609 TGTGCTCAGCACTAGTCGGATAAACTGACGATATTAAATG
1 TGTGCCCAACACTAGTCGGATAACCCAAC-A-A--AGATT
21862649 TGTGCCCAACACTAGTCGGATAACCCAACAAAGATT
1 TGTGCCCAACACTAGTCGGATAACCCAACAAAGATT
*
21862685 TGCGCCCAAC
1 TGTGCCCAAC
21862695 GCTAATCGAA
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
36 35 0.53
37 1 0.02
38 2 0.03
39 1 0.02
40 27 0.41
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (36 bp):
TGTGCCCAACACTAGTCGGATAACCCAACAAAGATT
Found at i:21862676 original size:76 final size:76
Alignment explanation
Indices: 21862543--21862741 Score: 281
Period size: 76 Copynumber: 2.6 Consensus size: 76
21862533 CGCCTAGTGT
* * *
21862543 TAGTCGGATAAACTGACAAAATTAAATGTGTGTGCCCAACACTAGTTGGATAACCCAACAAAGAT
1 TAGTCGGATAAACTGACGATATTAAA--TGTGTGCCCAACACTAGTCGGATAACCCAACAAAGAT
* * *
21862608 TTGTGCTCAGCAC
64 TTGCGCCCAACAC
21862621 TAGTCGGATAAACTGACGATATTAAATGTGTGCCCAACACTAGTCGGATAACCCAACAAAGATTT
1 TAGTCGGATAAACTGACGATATTAAATGTGTGCCCAACACTAGTCGGATAACCCAACAAAGATTT
*
21862686 GCGCCCAACGC
66 GCGCCCAACAC
* * * *
21862697 TAATCGAATAAACCGACGATATTAAATGTGTGCCCAACATTAGTC
1 TAGTCGGATAAACTGACGATATTAAATGTGTGCCCAACACTAGTC
21862742 AGAAAAATCG
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
76 86 0.78
78 24 0.22
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
TAGTCGGATAAACTGACGATATTAAATGTGTGCCCAACACTAGTCGGATAACCCAACAAAGATTT
GCGCCCAACAC
Found at i:21869690 original size:20 final size:20
Alignment explanation
Indices: 21869626--21869689 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
21869616 TAAATTTAAG
21869626 AAAATGGATCAATTTTCTGA
1 AAAATGGATCAATTTTCTGA
21869646 AAAATGGATCAATTTTCTGA
1 AAAATGGATCAATTTTCTGA
**
21869666 AAAATGGATTGATTTTCTAGA
1 AAAATGGATCAATTTTCT-GA
21869687 AAA
1 AAA
21869690 TATGATGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 36 0.88
21 5 0.12
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (20 bp):
AAAATGGATCAATTTTCTGA
Found at i:21875216 original size:17 final size:19
Alignment explanation
Indices: 21875196--21875230 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21875186 TATTACTTAA
21875196 AATG-TAAAA-TTATTATC
1 AATGTTAAAACTTATTATC
21875213 AATGTTAAAACTTATTAT
1 AATGTTAAAACTTATTAT
21875231 TAAATAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (19 bp):
AATGTTAAAACTTATTATC
Found at i:21877375 original size:30 final size:30
Alignment explanation
Indices: 21877339--21877398 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21877329 TTAAAACCGT
*
21877339 TATAGGGTACTTATGTTAAGGTAATTGTAC
1 TATAGGGTACTCATGTTAAGGTAATTGTAC
21877369 TATAGGGTACTCATGTTAAGGTAATTGTAC
1 TATAGGGTACTCATGTTAAGGTAATTGTAC
21877399 ATGATGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (30 bp):
TATAGGGTACTCATGTTAAGGTAATTGTAC
Found at i:21878576 original size:77 final size:76
Alignment explanation
Indices: 21878449--21878602 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 76
21878439 GACATAGCAG
21878449 TAAACCATTTTAGTGCTTACATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTAATTATTT
1 TAAACCATTTTAGTGCTTACATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTAATTA-TT
21878514 TTTTGTCACAGT
65 TTTTGTCACAGT
21878526 TAAACCATTTTAGTGCTTACATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTAATTATTT
1 TAAACCATTTTAGTGCTTACATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTAATTATTT
21878591 TTTGTCACAGT
66 TTTGTCACAGT
21878602 T
1 T
21878603 TATGGATTTC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 15 0.19
77 62 0.81
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (76 bp):
TAAACCATTTTAGTGCTTACATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTAATTATTT
TTTGTCACAGT
Found at i:21878590 original size:38 final size:38
Alignment explanation
Indices: 21878469--21878590 Score: 112
Period size: 38 Copynumber: 3.2 Consensus size: 38
21878459 TAGTGCTTAC
21878469 ATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTA
1 ATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTA
* **
21878507 ATTATTT-TTTTGT-CACA-GTT-A--AACCATTTTAGTGCTTA
1 ATTATTTCTTTTATGGGCATGTTCATGAACC--TTT--T--TTA
21878545 CATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTA
1 -ATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTA
21878584 ATTATTT
1 ATTATTT
21878591 TTTGTCACAG
Statistics
Matches: 65, Mismatches: 6, Indels: 26
0.67 0.06 0.27
Matches are distributed among these distances:
32 4 0.06
34 4 0.06
35 3 0.05
36 3 0.05
37 5 0.08
38 17 0.26
39 10 0.15
40 5 0.08
41 3 0.05
42 3 0.05
43 4 0.06
45 4 0.06
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.52
Consensus pattern (38 bp):
ATTATTTCTTTTATGGGCATGTTCATGAACCTTTTTTA
Found at i:21879894 original size:3 final size:3
Alignment explanation
Indices: 21879886--21879920 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21879876 TAGCTAGTTG
21879886 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21879921 TCCTTTTTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21886556 original size:5 final size:5
Alignment explanation
Indices: 21886546--21886574 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
21886536 CCAAGAACCC
21886546 AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAAT
21886575 CATACATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:21888030 original size:22 final size:20
Alignment explanation
Indices: 21888005--21888047 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
21887995 TGTTTTATTT
21888005 TAATAATAAATTTTAACAATAA
1 TAATAATAAA-TTTAA-AATAA
**
21888027 TAATTCTAAATTTAAAATAA
1 TAATAATAAATTTAAAATAA
21888047 T
1 T
21888048 TTTCTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATAATAAATTTAAAATAA
Found at i:21888098 original size:27 final size:26
Alignment explanation
Indices: 21888040--21888100 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
21888030 TTCTAAATTT
*
21888040 AAAATAATTTTCTTAATATATTATTGA
1 AAAAT-ATTTTCTTAATATATTAATGA
*
21888067 AAAATATTTATCTTAATATTTTAAT-A
1 AAAATATTT-TCTTAATATATTAATGA
21888093 ATAAATAT
1 A-AAATAT
21888101 ATATTACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
AAAATATTTTCTTAATATATTAATGA
Found at i:21888336 original size:17 final size:17
Alignment explanation
Indices: 21888300--21888353 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
21888290 CATTGTTTAT
* **
21888300 TATTAATTTTTATATGA
1 TATTAATTATTATAAAA
21888317 TATTAATTATTATAAAA
1 TATTAATTATTATAAAA
* *
21888334 TATCATCTTATTATAAAA
1 TATTA-ATTATTATAAAA
21888352 TA
1 TA
21888354 AATTTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTAATTATTATAAAA
Found at i:21888521 original size:21 final size:21
Alignment explanation
Indices: 21888497--21888541 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 21
21888487 ATCCAAATAT
21888497 AAAAAAAAT-ATCAATTTTTCC
1 AAAAAAAATAATCAA-TTTTCC
21888518 -AAAAAAATCAATCAATTTTCC
1 AAAAAAAAT-AATCAATTTTCC
21888539 AAA
1 AAA
21888542 TATCATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAAAATAATCAATTTTCC
Found at i:21888522 original size:22 final size:21
Alignment explanation
Indices: 21888497--21888541 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21888487 ATCCAAATAT
*
21888497 AAAAAAA-ATATCAATTTTTCC
1 AAAAAAATAAATCAA-TTTTCC
*
21888518 AAAAAAATCAATCAATTTTCC
1 AAAAAAATAAATCAATTTTCC
21888539 AAA
1 AAA
21888542 TATCATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAAATAAATCAATTTTCC
Found at i:21902362 original size:42 final size:42
Alignment explanation
Indices: 21902295--21902408 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
21902285 TGTGGCTCGG
* * * * *
21902295 CCGTGTGTGACACACGGACTGAGACATGGGCGTGTGACTTAA
1 CCGTGTGTGACACACGGCCTAAGACACGGGCATATGACTTAA
* *
21902337 TCGTGTGTGACACACGGCCTAAGACACGGGCATATGACTTAG
1 CCGTGTGTGACACACGGCCTAAGACACGGGCATATGACTTAA
* *
21902379 CCATGTGTGACACACGGCCTGACGACACGG
1 CCGTGTGTGACACACGGCCT-AAGACACGG
21902409 TCGTGTATCC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 53 0.87
43 8 0.13
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (42 bp):
CCGTGTGTGACACACGGCCTAAGACACGGGCATATGACTTAA
Found at i:21902494 original size:13 final size:13
Alignment explanation
Indices: 21902476--21902506 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21902466 CATGGCCTGG
21902476 GACACGGGCATGT
1 GACACGGGCATGT
*
21902489 GACACGGGCGTGT
1 GACACGGGCATGT
21902502 GACAC
1 GACAC
21902507 TATTTAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.39, T:0.13
Consensus pattern (13 bp):
GACACGGGCATGT
Found at i:21917828 original size:27 final size:28
Alignment explanation
Indices: 21917798--21917923 Score: 91
Period size: 27 Copynumber: 4.6 Consensus size: 28
21917788 CTCGACTTAT
* *
21917798 AAAATTACCGAAGTACCCCCAG-TTTGC
1 AAAATTACCAAAATACCCCCAGATTTGC
* * * *
21917825 AAAATTAACAAAATACCCTC-GATATGT
1 AAAATTACCAAAATACCCCCAGATTTGC
* * * *
21917852 GAAATTAACAAAGTA-CCCCTGATTTGC
1 AAAATTACCAAAATACCCCCAGATTTGC
**
21917879 AAAATTACCAAAATACCTTCAG-TTTAG-
1 AAAATTACCAAAATACCCCCAGATTT-GC
*
21917906 AAAATTACCGAAATACCC
1 AAAATTACCAAAATACCC
21917924 TTATAGGGTA
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
26 4 0.05
27 68 0.89
28 4 0.05
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (28 bp):
AAAATTACCAAAATACCCCCAGATTTGC
Found at i:21917923 original size:54 final size:55
Alignment explanation
Indices: 21917798--21917923 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 55
21917788 CTCGACTTAT
*
21917798 AAAATTACCGAAGTACCCCCAGTTTGCAAAATTAACAAAATACCCTCGATATGTG
1 AAAATTACCGAAATACCCCCAGTTTGCAAAATTAACAAAATACCCTCGATATGTG
* * * *
21917853 -AAATTAAC-AAAGTA-CCCCTGATTTGCAAAATTACCAAAATACCTTC-AGT-T-TAG
1 AAAATTACCGAAA-TACCCCCAG-TTTGCAAAATTAACAAAATACCCTCGA-TATGT-G
21917906 AAAATTACCGAAATACCC
1 AAAATTACCGAAATACCC
21917924 TTATAGGGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
52 1 0.02
53 10 0.17
54 42 0.72
55 5 0.09
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (55 bp):
AAAATTACCGAAATACCCCCAGTTTGCAAAATTAACAAAATACCCTCGATATGTG
Found at i:21918543 original size:27 final size:26
Alignment explanation
Indices: 21918478--21918548 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
21918468 CCCAGCTATT
*
21918478 AATGATATTGAGAATGGGCTAGGCCCA
1 AATGATATTG-TAATGGGCTAGGCCCA
*
21918505 ATTGAT-TCTGTAATGGGCT-GTGACCCA
1 AATGATAT-TGTAATGGGCTAG-G-CCCA
*
21918532 AATGATATTGTAGTGGG
1 AATGATATTGTAATGGG
21918549 TTTTGGCCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
25 1 0.03
26 10 0.28
27 24 0.67
28 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (26 bp):
AATGATATTGTAATGGGCTAGGCCCA
Found at i:21919274 original size:6 final size:6
Alignment explanation
Indices: 21919263--21919289 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21919253 GGATTGAAAG
21919263 TTTCCA TTTCCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTT
21919290 TTGGAAACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:21931953 original size:16 final size:16
Alignment explanation
Indices: 21931932--21931967 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
21931922 TTTTACTAAA
21931932 TTCACTTGGGCATCAT
1 TTCACTTGGGCATCAT
21931948 TTCACTTGGGCATCAT
1 TTCACTTGGGCATCAT
21931964 TTCA
1 TTCA
21931968 GTATAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (16 bp):
TTCACTTGGGCATCAT
Found at i:21936961 original size:143 final size:143
Alignment explanation
Indices: 21936703--21936991 Score: 533
Period size: 143 Copynumber: 2.0 Consensus size: 143
21936693 TGTAGTAAAA
*
21936703 AGATAAATAATAAAGTAGTGGTGTCCGCAAGTATACAGGTTGTCACACCTAGTTTTTAATAAGGT
1 AGATAAATAATAAAGTAGTGGTGTCCGCAAGTATACAGGTTGTCACACCTAGTTTTCAATAAGGT
* *
21936768 TTCAAAATTAAGAAAGTTTTGAGAGTTAATTGCAAGAGATAGTAAGTTCAACGGACTCTACTAAA
66 CTCAAAATTAAGAAAGTTTTGAGAGTTAATAGCAAGAGATAGTAAGTTCAACGGACTCTACTAAA
21936833 AAATCTAAAGAAG
131 AAATCTAAAGAAG
**
21936846 AGATAAATAATAAAGTAGTGGTGTCCGCAAGTATATGGGTTGTCACACCTAGTTTTCAATAAGGT
1 AGATAAATAATAAAGTAGTGGTGTCCGCAAGTATACAGGTTGTCACACCTAGTTTTCAATAAGGT
21936911 CTCAAAATTAAGAAAGTTTTGAGAGTTAATAGCAAGAGATAGTAAGTTCAACGGACTCTACTAAA
66 CTCAAAATTAAGAAAGTTTTGAGAGTTAATAGCAAGAGATAGTAAGTTCAACGGACTCTACTAAA
21936976 AAATCTAAAGAAG
131 AAATCTAAAGAAG
21936989 AGA
1 AGA
21936992 AAGCTGAGGA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 141 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (143 bp):
AGATAAATAATAAAGTAGTGGTGTCCGCAAGTATACAGGTTGTCACACCTAGTTTTCAATAAGGT
CTCAAAATTAAGAAAGTTTTGAGAGTTAATAGCAAGAGATAGTAAGTTCAACGGACTCTACTAAA
AAATCTAAAGAAG
Found at i:21939830 original size:25 final size:26
Alignment explanation
Indices: 21939796--21939858 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
21939786 ATGAATTTTC
21939796 TCAAAATTTTACCA-AGATAAAATCG
1 TCAAAATTTTACCACAGATAAAATCG
* *
21939821 TCAAAATTTTACCACAGATAAATTTG
1 TCAAAATTTTACCACAGATAAAATCG
*
21939847 TAAAAATTTTAC
1 TCAAAATTTTAC
21939859 TAGGTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACCACAGATAAAATCG
Found at i:21945135 original size:27 final size:27
Alignment explanation
Indices: 21945062--21945162 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
21945052 TGTCAGGAAG
*
21945062 GAAAAGCCTTTGTGGCAAAATATGAAA
1 GAAAAGCCTTTGTGGCGAAATATGAAA
**
21945089 G-AAAGCCTTTGTGGATAAATATGAAA
1 GAAAAGCCTTTGTGGCGAAATATGAAA
* *
21945115 GAAAAGCCTTTATGGCGAAATATCAAA
1 GAAAAGCCTTTGTGGCGAAATATGAAA
* * *
21945142 GGAAAGCCCTTCTGGCGAAAT
1 GAAAAGCCTTTGTGGCGAAAT
21945163 TCCATAAGGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.38
27 40 0.62
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (27 bp):
GAAAAGCCTTTGTGGCGAAATATGAAA
Found at i:21957183 original size:3 final size:3
Alignment explanation
Indices: 21957177--21957216 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
21957167 CATCATCATC
21957177 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
21957217 ATTCTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:21957425 original size:21 final size:20
Alignment explanation
Indices: 21957364--21957427 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
21957354 GACTTTTTAA
*
21957364 AAAATAATATACTATTATTTT
1 AAAATTATATAC-ATTATTTT
*
21957385 TAAATTATTACTAACA-TATTTT
1 AAAATTA-TA-T-ACATTATTTT
21957407 AAAATTATCATACATTATTTT
1 AAAATTAT-ATACATTATTTT
21957428 TTAAAAATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 15 0.43
23 2 0.06
24 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATTATATACATTATTTT
Found at i:21957428 original size:22 final size:21
Alignment explanation
Indices: 21957364--21957433 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
21957354 GACTTTTTAA
*
21957364 AAAATAATATACTATTATTTTT
1 AAAATTATATAC-ATTATTTTT
21957386 -AAATTATTACTAACA-TA-TTTT
1 AAAATTA-TA-T-ACATTATTTTT
21957407 AAAATTATCATACATTATTTTTT
1 AAAATTAT-ATACATTA-TTTTT
21957430 AAAA
1 AAAA
21957434 ATCCATGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
20 3 0.08
21 13 0.33
22 11 0.28
23 10 0.26
24 2 0.05
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATTATATACATTATTTTT
Found at i:21964452 original size:15 final size:16
Alignment explanation
Indices: 21964434--21964463 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21964424 TGGTGTCTTA
21964434 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
21964449 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
21964464 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:21973155 original size:30 final size:30
Alignment explanation
Indices: 21973098--21973156 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
21973088 TGCCTTTGAA
* * *
21973098 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATATACAAAAAGAGACACCAAATTTTT
21973128 AATATATACAAAAAGAG-CAACCAAATTTT
1 AATATATACAAAAAGAGAC-ACCAAATTTT
21973157 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
AATATATACAAAAAGAGACACCAAATTTTT
Found at i:21977288 original size:13 final size:14
Alignment explanation
Indices: 21977259--21977300 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
21977249 ACCCCTCTTG
21977259 TTTTTA-TTTTCAAT
1 TTTTTATTTTTC-AT
21977273 TTTTTATTTTTC-T
1 TTTTTATTTTTCAT
21977286 TTTTTATTTTGTCAT
1 TTTTTATTTT-TCAT
21977301 ATGAGAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.44
14 8 0.32
15 6 0.24
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTTTATTTTTCAT
Found at i:21979392 original size:23 final size:24
Alignment explanation
Indices: 21979352--21979397 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
21979342 TTTAAAAATT
21979352 TTAAAAATAAATAAATAA-AACTC
1 TTAAAAATAAATAAATAATAACTC
21979375 TTAAAAATAAA-AATATAATAACT
1 TTAAAAATAAATAA-ATAATAACT
21979398 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.10
23 15 0.71
24 4 0.19
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (24 bp):
TTAAAAATAAATAAATAATAACTC
Found at i:21986070 original size:44 final size:46
Alignment explanation
Indices: 21985982--21986072 Score: 125
Period size: 44 Copynumber: 2.0 Consensus size: 46
21985972 GAGCTATAAG
*
21985982 GGAATAGAGCTGTAATAAGTAATTCAATTGTTTGGTTGAATGGAAT
1 GGAATAGAGCTGTAATAAGTAATTCAATTGTTTAGTTGAATGGAAT
* *
21986028 GGAATAGATCTGTAAT-AGT-ATT-ATTGTGTTTAGTTGAATGGAAT
1 GGAATAGAGCTGTAATAAGTAATTCAAT-TGTTTAGTTGAATGGAAT
21986072 G
1 G
21986073 ATGTTGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 21 0.51
45 3 0.07
46 15 0.37
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.37
Consensus pattern (46 bp):
GGAATAGAGCTGTAATAAGTAATTCAATTGTTTAGTTGAATGGAAT
Found at i:21987992 original size:37 final size:37
Alignment explanation
Indices: 21987950--21988024 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
21987940 TAAAAGGTGA
*
21987950 AAGAAATCCCTCACAATTTGTGTATCCAGCATCAACT
1 AAGAAATCCCTCACAATTTGTCTATCCAGCATCAACT
*
21987987 AAGAAATCCCTCACTATTTGTCTATCCAGCATCAACT
1 AAGAAATCCCTCACAATTTGTCTATCCAGCATCAACT
21988024 A
1 A
21988025 GATAATAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (37 bp):
AAGAAATCCCTCACAATTTGTCTATCCAGCATCAACT
Found at i:21989242 original size:17 final size:17
Alignment explanation
Indices: 21989220--21989253 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21989210 TTAAATGAAA
21989220 CATATAAAAAATAAAAT
1 CATATAAAAAATAAAAT
* *
21989237 CATATAGAAAATTAAAT
1 CATATAAAAAATAAAAT
21989254 ATGACCAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (17 bp):
CATATAAAAAATAAAAT
Found at i:21991241 original size:17 final size:17
Alignment explanation
Indices: 21991205--21991242 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21991195 ACCCAAATGT
**
21991205 TAAAGAAGGAAAAATCA
1 TAAAGAAGGAAAAAAAA
21991222 TAAAGAAGGAAAAAAAA
1 TAAAGAAGGAAAAAAAA
21991239 TAAA
1 TAAA
21991243 TTACCTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.71, C:0.03, G:0.16, T:0.11
Consensus pattern (17 bp):
TAAAGAAGGAAAAAAAA
Found at i:21994037 original size:138 final size:138
Alignment explanation
Indices: 21993784--21994099 Score: 474
Period size: 138 Copynumber: 2.3 Consensus size: 138
21993774 GAGAACATAG
*
21993784 ATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACTAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTAAATTTATT
* * * ** * * *
21993849 AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATTTTTT
66 AAGATAAACAATTATATTAATTAATTTCAATAAAAATATAAAAGACATGAAAATTAATATTCTTT
*
21993914 TGGAAAGA
131 TAGAAAGA
*
21993922 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-TCGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACT-AAATTTAT
21993986 TAAGATAAACAATTATATTAATTAATTTCAATAAAAATATAAAAGACATGAAAATTAATATTCTT
65 TAAGATAAACAATTATATTAATTAATTTCAATAAAAATATAAAAGACATGAAAATTAATATTCTT
*
21994051 TTAGAAATA
130 TTAGAAAGA
* *
21994060 ATATAATTAATATATTACTTTGATTCATATC-AAATATTAA
1 ATATAATTAATATATGAATTTGATTCATA-CAAAATATTAA
21994100 GGTCAAAATA
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
137 1 0.01
138 160 0.99
139 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTAAATTTATT
AAGATAAACAATTATATTAATTAATTTCAATAAAAATATAAAAGACATGAAAATTAATATTCTTT
TAGAAAGA
Found at i:21994113 original size:85 final size:84
Alignment explanation
Indices: 21994019--21994183 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 84
21994009 AATTTCAATA
* *
21994019 AAAATATAAAAGACATGAAAATTAATATTCTTTTAGAAATAATATAATTAATATATTACTTTGAT
1 AAAATATAAAAGACATGAAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGACTTTGAT
21994084 TCATATC-AAATATTAAGGTC
66 T-ATA-CAAAATATTAAGGTC
* *
21994104 AAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGACTTTGAT
1 AAAATATAAAAGACATGAAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGACTTTGAT
21994169 TATACAAAATATTAA
66 TATACAAAATATTAA
21994184 TTGTATATAT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
83 1 0.01
84 12 0.16
85 62 0.83
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (84 bp):
AAAATATAAAAGACATGAAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGACTTTGAT
TATACAAAATATTAAGGTC
Done.